HEADER OXIDOREDUCTASE 04-MAY-17 5VP5 TITLE CRYSTAL STRUCTURE OF A 3-OXOACYL-ACYL-CARRIER PROTEIN REDUCTASE FABG4 TITLE 2 FROM MYCOBACTERIUM SMEGMATIS BOUND TO NAD COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3-OXOACYL-ACYL-CARRIER PROTEIN REDUCTASE FABG4; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: OXIDOREDUCTASE,SHORT CHAIN DEHYDROGENASE/REDUCTASE FAMILY COMPND 5 PROTEIN; COMPND 6 EC: 1.1.1.100; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM SMEGMATIS; SOURCE 3 ORGANISM_TAXID: 246196; SOURCE 4 STRAIN: ATCC 700084 / MC(2)155; SOURCE 5 GENE: FABG4, MSMEG_0372, MSMEI_0365; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NIAID, STRUCTURAL GENOMICS, SEATTLE STRUCTURAL GENOMICS CENTER FOR KEYWDS 2 INFECTIOUS DISEASE, SSGCID, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 2 04-OCT-23 5VP5 1 REMARK REVDAT 1 17-MAY-17 5VP5 0 JRNL AUTH T.E.EDWARDS,S.J.MAYCLIN,D.D.LORIMER, JRNL AUTH 2 SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE JRNL AUTH 3 (SSGCID) JRNL TITL CRYSTAL STRUCTURE OF A 3-OXOACYL-ACYL-CARRIER PROTEIN JRNL TITL 2 REDUCTASE FABG4 FROM MYCOBACTERIUM SMEGMATIS BOUND TO NAD JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (DEV_2744) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.63 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 34404 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.138 REMARK 3 R VALUE (WORKING SET) : 0.136 REMARK 3 FREE R VALUE : 0.177 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.060 REMARK 3 FREE R VALUE TEST SET COUNT : 2086 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 48.6424 - 4.4380 0.99 2220 129 0.1431 0.1669 REMARK 3 2 4.4380 - 3.5229 0.99 2210 108 0.1155 0.1541 REMARK 3 3 3.5229 - 3.0777 1.00 2185 122 0.1283 0.1540 REMARK 3 4 3.0777 - 2.7963 1.00 2124 166 0.1318 0.1785 REMARK 3 5 2.7963 - 2.5959 1.00 2162 139 0.1342 0.1543 REMARK 3 6 2.5959 - 2.4428 1.00 2131 149 0.1367 0.1720 REMARK 3 7 2.4428 - 2.3205 1.00 2120 175 0.1368 0.2027 REMARK 3 8 2.3205 - 2.2195 1.00 2156 130 0.1350 0.1606 REMARK 3 9 2.2195 - 2.1341 1.00 2151 131 0.1401 0.1886 REMARK 3 10 2.1341 - 2.0604 1.00 2179 130 0.1432 0.2036 REMARK 3 11 2.0604 - 1.9960 1.00 2152 136 0.1410 0.2009 REMARK 3 12 1.9960 - 1.9389 1.00 2176 117 0.1446 0.1866 REMARK 3 13 1.9389 - 1.8879 1.00 2127 145 0.1445 0.2035 REMARK 3 14 1.8879 - 1.8418 1.00 2120 152 0.1535 0.2301 REMARK 3 15 1.8418 - 1.7999 0.98 2105 157 0.1619 0.2068 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.820 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.97 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.006 3111 REMARK 3 ANGLE : 0.791 4266 REMARK 3 CHIRALITY : 0.057 513 REMARK 3 PLANARITY : 0.005 582 REMARK 3 DIHEDRAL : 10.775 1888 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 26 THROUGH 78 ) REMARK 3 ORIGIN FOR THE GROUP (A): 19.0271 10.1608 -22.4505 REMARK 3 T TENSOR REMARK 3 T11: 0.1407 T22: 0.1420 REMARK 3 T33: 0.0768 T12: -0.0188 REMARK 3 T13: 0.0247 T23: -0.0232 REMARK 3 L TENSOR REMARK 3 L11: 2.4072 L22: 2.4764 REMARK 3 L33: 0.9573 L12: -0.7226 REMARK 3 L13: 0.0860 L23: -0.9766 REMARK 3 S TENSOR REMARK 3 S11: 0.0372 S12: 0.1475 S13: 0.0173 REMARK 3 S21: -0.1674 S22: -0.0759 S23: -0.1231 REMARK 3 S31: 0.0055 S32: 0.0572 S33: 0.0445 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 79 THROUGH 202 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.1876 5.6075 -10.8026 REMARK 3 T TENSOR REMARK 3 T11: 0.0684 T22: 0.0931 REMARK 3 T33: 0.0732 T12: -0.0064 REMARK 3 T13: 0.0165 T23: -0.0068 REMARK 3 L TENSOR REMARK 3 L11: 0.6581 L22: 0.7928 REMARK 3 L33: 1.4296 L12: 0.0066 REMARK 3 L13: 0.2643 L23: -0.1847 REMARK 3 S TENSOR REMARK 3 S11: 0.0045 S12: -0.0092 S13: 0.0008 REMARK 3 S21: 0.0122 S22: 0.0025 S23: -0.0296 REMARK 3 S31: -0.0381 S32: 0.1113 S33: -0.0056 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 203 THROUGH 241 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.0311 8.2050 -28.2150 REMARK 3 T TENSOR REMARK 3 T11: 0.1039 T22: 0.0816 REMARK 3 T33: 0.0460 T12: -0.0271 REMARK 3 T13: -0.0035 T23: 0.0140 REMARK 3 L TENSOR REMARK 3 L11: 5.6914 L22: 2.1122 REMARK 3 L33: 1.2362 L12: -1.7525 REMARK 3 L13: 0.2143 L23: 0.0002 REMARK 3 S TENSOR REMARK 3 S11: -0.0138 S12: 0.2259 S13: 0.1235 REMARK 3 S21: -0.0515 S22: 0.0183 S23: -0.0719 REMARK 3 S31: -0.0884 S32: 0.0374 S33: -0.0275 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 242 THROUGH 268 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.0463 10.3885 -28.5682 REMARK 3 T TENSOR REMARK 3 T11: 0.0848 T22: 0.1406 REMARK 3 T33: 0.1148 T12: -0.0001 REMARK 3 T13: -0.0307 T23: 0.0186 REMARK 3 L TENSOR REMARK 3 L11: 1.5875 L22: 2.8988 REMARK 3 L33: 4.9893 L12: 1.4423 REMARK 3 L13: -2.5313 L23: -3.3033 REMARK 3 S TENSOR REMARK 3 S11: -0.0230 S12: 0.1507 S13: 0.2971 REMARK 3 S21: 0.0068 S22: 0.2475 S23: 0.2000 REMARK 3 S31: -0.1233 S32: -0.3244 S33: -0.2443 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 269 THROUGH 316 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.6518 7.3353 -16.0718 REMARK 3 T TENSOR REMARK 3 T11: 0.0857 T22: 0.0828 REMARK 3 T33: 0.1028 T12: 0.0149 REMARK 3 T13: -0.0125 T23: 0.0215 REMARK 3 L TENSOR REMARK 3 L11: 0.6069 L22: 1.3026 REMARK 3 L33: 3.5898 L12: -0.0427 REMARK 3 L13: -0.1106 L23: 1.6719 REMARK 3 S TENSOR REMARK 3 S11: 0.0223 S12: -0.0528 S13: 0.0565 REMARK 3 S21: -0.0465 S22: -0.0330 S23: 0.0749 REMARK 3 S31: -0.1757 S32: -0.2514 S33: 0.0797 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 317 THROUGH 353 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.8927 3.1079 -13.6758 REMARK 3 T TENSOR REMARK 3 T11: 0.0805 T22: 0.0791 REMARK 3 T33: 0.0945 T12: 0.0153 REMARK 3 T13: -0.0098 T23: 0.0186 REMARK 3 L TENSOR REMARK 3 L11: 0.7072 L22: 1.3601 REMARK 3 L33: 3.0296 L12: 0.3693 REMARK 3 L13: 0.2238 L23: 1.4701 REMARK 3 S TENSOR REMARK 3 S11: -0.0026 S12: -0.0372 S13: 0.0071 REMARK 3 S21: 0.0402 S22: 0.0617 S23: -0.0360 REMARK 3 S31: -0.0122 S32: 0.0373 S33: -0.0695 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 354 THROUGH 416 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.7530 8.9136 -11.2618 REMARK 3 T TENSOR REMARK 3 T11: 0.1127 T22: 0.0974 REMARK 3 T33: 0.1172 T12: 0.0028 REMARK 3 T13: -0.0124 T23: 0.0116 REMARK 3 L TENSOR REMARK 3 L11: 1.9806 L22: 0.1434 REMARK 3 L33: 2.1190 L12: 0.0165 REMARK 3 L13: -0.2333 L23: 0.1211 REMARK 3 S TENSOR REMARK 3 S11: 0.0356 S12: 0.0503 S13: 0.2326 REMARK 3 S21: 0.0052 S22: -0.0382 S23: -0.0871 REMARK 3 S31: -0.2493 S32: 0.0330 S33: -0.0558 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 417 THROUGH 450 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.1010 7.9097 -15.2742 REMARK 3 T TENSOR REMARK 3 T11: 0.0772 T22: 0.1036 REMARK 3 T33: 0.0708 T12: -0.0247 REMARK 3 T13: 0.0004 T23: -0.0123 REMARK 3 L TENSOR REMARK 3 L11: 2.4590 L22: 3.3102 REMARK 3 L33: 1.6766 L12: 0.2427 REMARK 3 L13: 0.2752 L23: -0.1503 REMARK 3 S TENSOR REMARK 3 S11: -0.0148 S12: -0.1815 S13: 0.1426 REMARK 3 S21: 0.2188 S22: -0.0294 S23: 0.0061 REMARK 3 S31: -0.1384 S32: 0.0880 S33: 0.0175 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5VP5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-MAY-17. REMARK 100 THE DEPOSITION ID IS D_1000227801. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-APR-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34407 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 48.625 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 3.336 REMARK 200 R MERGE (I) : 0.03500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.9900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.96 REMARK 200 R MERGE FOR SHELL (I) : 0.12700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 7.420 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 3U0B REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MYSMA.00010.A.A1.PW28467 AT 19.87 REMARK 280 MG/ML WITH 4 MM NAD AGAINST MCSG1 SCREEN CONDITION E3 50 MM REMARK 280 MGCL2, 0.1 M HEPES PH 7.5, 30% PEG 550 MME SOAKED OVERNIGHT WITH REMARK 280 10 MM NAD, CRYSTAL TRACKING ID 271652E3, UNIQUE PUCK ID HNK3-3, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 50.79000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.30500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 50.79000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 30.30500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -73.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1045 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A -21 REMARK 465 ALA A -20 REMARK 465 HIS A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 MET A -13 REMARK 465 GLY A -12 REMARK 465 THR A -11 REMARK 465 LEU A -10 REMARK 465 GLU A -9 REMARK 465 ALA A -8 REMARK 465 GLN A -7 REMARK 465 THR A -6 REMARK 465 GLN A -5 REMARK 465 GLY A -4 REMARK 465 PRO A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 MET A 0 REMARK 465 VAL A 1 REMARK 465 ALA A 2 REMARK 465 SER A 3 REMARK 465 ASP A 4 REMARK 465 LEU A 5 REMARK 465 PHE A 6 REMARK 465 SER A 7 REMARK 465 GLN A 8 REMARK 465 VAL A 9 REMARK 465 VAL A 10 REMARK 465 ASN A 11 REMARK 465 SER A 12 REMARK 465 GLY A 13 REMARK 465 PRO A 14 REMARK 465 GLY A 15 REMARK 465 SER A 16 REMARK 465 PHE A 17 REMARK 465 LEU A 18 REMARK 465 ALA A 19 REMARK 465 LYS A 20 REMARK 465 GLN A 21 REMARK 465 LEU A 22 REMARK 465 GLY A 23 REMARK 465 VAL A 24 REMARK 465 PRO A 25 REMARK 465 LYS A 392 REMARK 465 MET A 393 REMARK 465 THR A 394 REMARK 465 GLU A 395 REMARK 465 ALA A 396 REMARK 465 ILE A 397 REMARK 465 PRO A 398 REMARK 465 LEU A 399 REMARK 465 ALA A 400 REMARK 465 THR A 401 REMARK 465 ARG A 402 REMARK 465 GLU A 403 REMARK 465 VAL A 404 REMARK 465 GLY A 405 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLN A 26 CG CD OE1 NE2 REMARK 470 GLU A 246 CG CD OE1 OE2 REMARK 470 LYS A 306 CG CD CE NZ REMARK 470 ARG A 321 CG CD NE CZ NH1 NH2 REMARK 470 THR A 391 OG1 CG2 REMARK 470 LEU A 408 CG CD1 CD2 REMARK 470 PHE A 412 CG CD1 CD2 CE1 CE2 CZ REMARK 470 MET A 447 CG SD CE REMARK 470 LEU A 448 CG CD1 CD2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OG SER A 49 O HOH A 601 2.04 REMARK 500 O HOH A 900 O HOH A 949 2.06 REMARK 500 O HOH A 628 O HOH A 962 2.12 REMARK 500 O HOH A 962 O HOH A 964 2.13 REMARK 500 O HOH A 714 O HOH A 795 2.15 REMARK 500 O HOH A 1043 O HOH A 1049 2.15 REMARK 500 OE2 GLU A 279 O HOH A 602 2.16 REMARK 500 O HOH A 892 O HOH A 994 2.18 REMARK 500 O HOH A 797 O HOH A 959 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ALA A 41 57.54 -93.27 REMARK 500 THR A 121 116.77 -36.60 REMARK 500 LYS A 298 135.86 -175.38 REMARK 500 LEU A 316 -53.66 -127.27 REMARK 500 SER A 342 -149.87 -89.86 REMARK 500 GLU A 390 104.08 -54.40 REMARK 500 SER A 432 33.54 -96.22 REMARK 500 CYS A 443 3.78 -150.46 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1050 DISTANCE = 6.68 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAD A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 503 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3U0B RELATED DB: PDB REMARK 900 APO STRUCTURE REMARK 900 RELATED ID: SSGCID-MYSMA.00010.A RELATED DB: TARGETTRACK DBREF 5VP5 A 2 450 UNP A0QPE7 A0QPE7_MYCS2 2 450 SEQADV 5VP5 MET A -21 UNP A0QPE7 INITIATING METHIONINE SEQADV 5VP5 ALA A -20 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 HIS A -19 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 HIS A -18 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 HIS A -17 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 HIS A -16 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 HIS A -15 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 HIS A -14 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 MET A -13 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 GLY A -12 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 THR A -11 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 LEU A -10 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 GLU A -9 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 ALA A -8 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 GLN A -7 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 THR A -6 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 GLN A -5 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 GLY A -4 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 PRO A -3 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 GLY A -2 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 SER A -1 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 MET A 0 UNP A0QPE7 EXPRESSION TAG SEQADV 5VP5 VAL A 1 UNP A0QPE7 EXPRESSION TAG SEQRES 1 A 472 MET ALA HIS HIS HIS HIS HIS HIS MET GLY THR LEU GLU SEQRES 2 A 472 ALA GLN THR GLN GLY PRO GLY SER MET VAL ALA SER ASP SEQRES 3 A 472 LEU PHE SER GLN VAL VAL ASN SER GLY PRO GLY SER PHE SEQRES 4 A 472 LEU ALA LYS GLN LEU GLY VAL PRO GLN PRO GLU THR LEU SEQRES 5 A 472 ARG ARG TYR ARG PRO GLY ASP PRO PRO LEU ALA GLY SER SEQRES 6 A 472 LEU LEU ILE GLY GLY SER GLY ARG VAL ALA GLU PRO LEU SEQRES 7 A 472 ARG THR ALA LEU ALA ASP ASP TYR ASN LEU VAL SER ASN SEQRES 8 A 472 ASN ILE GLY GLY ARG TRP ALA ASP SER PHE GLY GLY VAL SEQRES 9 A 472 VAL PHE ASP ALA THR GLY ILE THR GLU ALA GLU GLY LEU SEQRES 10 A 472 LYS GLU LEU TYR THR PHE PHE THR PRO LEU LEU ARG ASN SEQRES 11 A 472 LEU ALA PRO CYS ALA ARG VAL VAL VAL VAL GLY THR THR SEQRES 12 A 472 PRO ALA GLU ALA GLY SER VAL HIS ALA GLN VAL VAL GLN SEQRES 13 A 472 ARG ALA LEU GLU GLY PHE THR ARG SER LEU GLY LYS GLU SEQRES 14 A 472 LEU ARG ARG GLY ALA THR VAL SER LEU VAL TYR LEU SER SEQRES 15 A 472 ALA ASP ALA LYS PRO GLY ALA THR GLY LEU GLU SER THR SEQRES 16 A 472 MET ARG PHE ILE LEU SER ALA LYS SER ALA TYR VAL ASP SEQRES 17 A 472 GLY GLN VAL PHE ARG VAL GLY ALA ALA ASP SER THR PRO SEQRES 18 A 472 PRO ALA ASP TRP ASP LYS PRO LEU ASP GLY LYS VAL ALA SEQRES 19 A 472 VAL VAL THR GLY ALA ALA ARG GLY ILE GLY ALA THR ILE SEQRES 20 A 472 ALA GLU VAL PHE ALA ARG ASP GLY ALA THR VAL VAL ALA SEQRES 21 A 472 ILE ASP VAL ASP GLY ALA ALA GLU ASP LEU LYS ARG VAL SEQRES 22 A 472 ALA ASP LYS VAL GLY GLY THR ALA LEU THR LEU ASP VAL SEQRES 23 A 472 THR ALA ASP ASP ALA VAL ASP LYS ILE THR ALA HIS VAL SEQRES 24 A 472 THR GLU HIS HIS GLY GLY LYS VAL ASP ILE LEU VAL ASN SEQRES 25 A 472 ASN ALA GLY ILE THR ARG ASP LYS LEU LEU ALA ASN MET SEQRES 26 A 472 ASP GLU LYS ARG TRP ASP ALA VAL ILE ALA VAL ASN LEU SEQRES 27 A 472 LEU ALA PRO GLN ARG LEU THR GLU GLY LEU VAL GLY ASN SEQRES 28 A 472 GLY THR ILE GLY GLU GLY GLY ARG VAL ILE GLY LEU SER SEQRES 29 A 472 SER MET ALA GLY ILE ALA GLY ASN ARG GLY GLN THR ASN SEQRES 30 A 472 TYR ALA THR THR LYS ALA GLY MET ILE GLY LEU ALA GLU SEQRES 31 A 472 ALA LEU ALA PRO VAL LEU ALA ASP LYS GLY ILE THR ILE SEQRES 32 A 472 ASN ALA VAL ALA PRO GLY PHE ILE GLU THR LYS MET THR SEQRES 33 A 472 GLU ALA ILE PRO LEU ALA THR ARG GLU VAL GLY ARG ARG SEQRES 34 A 472 LEU ASN SER LEU PHE GLN GLY GLY GLN PRO VAL ASP VAL SEQRES 35 A 472 ALA GLU LEU ILE ALA TYR PHE ALA SER PRO ALA SER ASN SEQRES 36 A 472 ALA VAL THR GLY ASN THR ILE ARG VAL CYS GLY GLN ALA SEQRES 37 A 472 MET LEU GLY ALA HET NAD A 501 44 HET CL A 502 1 HET CL A 503 1 HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM CL CHLORIDE ION FORMUL 2 NAD C21 H27 N7 O14 P2 FORMUL 3 CL 2(CL 1-) FORMUL 5 HOH *450(H2 O) HELIX 1 AA1 VAL A 52 ALA A 61 1 10 HELIX 2 AA2 GLU A 91 GLY A 94 5 4 HELIX 3 AA3 LEU A 95 THR A 103 1 9 HELIX 4 AA4 LEU A 105 ARG A 107 5 3 HELIX 5 AA5 PRO A 122 ALA A 125 5 4 HELIX 6 AA6 SER A 127 LYS A 146 1 20 HELIX 7 AA7 ALA A 167 GLY A 169 5 3 HELIX 8 AA8 LEU A 170 LEU A 178 1 9 HELIX 9 AA9 SER A 179 ALA A 183 5 5 HELIX 10 AB1 ARG A 219 ASP A 232 1 14 HELIX 11 AB2 VAL A 241 GLY A 243 5 3 HELIX 12 AB3 ALA A 244 GLY A 256 1 13 HELIX 13 AB4 ASP A 268 HIS A 281 1 14 HELIX 14 AB5 LEU A 299 MET A 303 5 5 HELIX 15 AB6 ASP A 304 LEU A 316 1 13 HELIX 16 AB7 LEU A 316 ASN A 329 1 14 HELIX 17 AB8 SER A 343 GLY A 349 1 7 HELIX 18 AB9 GLN A 353 ASP A 376 1 24 HELIX 19 AC1 GLN A 416 SER A 429 1 14 SHEET 1 AA1 6 LEU A 66 VAL A 67 0 SHEET 2 AA1 6 SER A 43 GLY A 47 1 N LEU A 44 O VAL A 67 SHEET 3 AA1 6 PHE A 79 ASP A 85 1 O ASP A 85 N GLY A 47 SHEET 4 AA1 6 LEU A 109 THR A 120 1 O VAL A 118 N PHE A 84 SHEET 5 AA1 6 THR A 153 LEU A 159 1 O VAL A 157 N GLY A 119 SHEET 6 AA1 6 GLN A 188 VAL A 192 1 O VAL A 192 N TYR A 158 SHEET 1 AA2 7 THR A 258 THR A 261 0 SHEET 2 AA2 7 THR A 235 ASP A 240 1 N ALA A 238 O THR A 258 SHEET 3 AA2 7 VAL A 211 THR A 215 1 N ALA A 212 O VAL A 237 SHEET 4 AA2 7 ILE A 287 ASN A 290 1 O ILE A 287 N VAL A 213 SHEET 5 AA2 7 ARG A 337 LEU A 341 1 O ILE A 339 N LEU A 288 SHEET 6 AA2 7 THR A 380 PRO A 386 1 O VAL A 384 N GLY A 340 SHEET 7 AA2 7 THR A 439 VAL A 442 1 O ILE A 440 N ALA A 385 SITE 1 AC1 26 GLY A 216 ARG A 219 GLY A 220 ILE A 221 SITE 2 AC1 26 ASP A 240 VAL A 241 LEU A 262 ASP A 263 SITE 3 AC1 26 VAL A 264 ASN A 291 ALA A 292 LEU A 341 SITE 4 AC1 26 SER A 342 SER A 343 TYR A 356 LYS A 360 SITE 5 AC1 26 PRO A 386 ILE A 389 HOH A 603 HOH A 604 SITE 6 AC1 26 HOH A 628 HOH A 667 HOH A 746 HOH A 794 SITE 7 AC1 26 HOH A 798 HOH A 833 SITE 1 AC2 2 ARG A 307 HOH A1042 SITE 1 AC3 2 LEU A 299 ASN A 302 CRYST1 101.580 60.610 76.270 90.00 126.69 90.00 C 1 2 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.009844 0.000000 0.007336 0.00000 SCALE2 0.000000 0.016499 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016352 0.00000